Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052839.t1 | XP_013466755.2 | 93.8 | 129 | 8 | 0 | 1 | 129 | 690 | 818 | 1.90E-64 | 255 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052839.t1 | A0A396JLZ7 | 91.3 | 92 | 8 | 0 | 1 | 92 | 41 | 132 | 2.5e-42 | 181.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene052839.t1 | TF | B3 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052839.t1 | MTR_1g035640 | 56.000 | 100 | 44 | 0 | 1 | 100 | 202 | 301 | 1.34e-31 | 116 |
| MS.gene052839.t1 | MTR_1g035490 | 42.254 | 142 | 68 | 2 | 1 | 128 | 118 | 259 | 7.86e-31 | 112 |
| MS.gene052839.t1 | MTR_1g035570 | 41.732 | 127 | 63 | 1 | 1 | 127 | 209 | 324 | 5.31e-27 | 103 |
| MS.gene052839.t1 | MTR_1g050845 | 41.447 | 152 | 56 | 5 | 1 | 128 | 185 | 327 | 3.69e-24 | 96.7 |
| MS.gene052839.t1 | MTR_1g035620 | 42.361 | 144 | 67 | 5 | 1 | 128 | 197 | 340 | 1.44e-22 | 91.7 |
| MS.gene052839.t1 | MTR_6g061070 | 51.087 | 92 | 43 | 2 | 1 | 90 | 242 | 333 | 3.47e-22 | 90.9 |
| MS.gene052839.t1 | MTR_5g044670 | 37.634 | 93 | 57 | 1 | 1 | 92 | 224 | 316 | 2.50e-16 | 73.6 |
| MS.gene052839.t1 | MTR_1g035540 | 58.333 | 48 | 20 | 0 | 44 | 91 | 31 | 78 | 1.17e-14 | 66.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACTTGCAAGTTATTATCTT+TGG | 0.260722 | 1.4:+20460785 | None:intergenic |
| GAGATATCTTCAACAAATTC+AGG | 0.324285 | 1.4:-20460519 | MS.gene052839:CDS |
| TCGAAGGGATTGCAAGGTTA+AGG | 0.333047 | 1.4:-20460896 | MS.gene052839:CDS |
| TATTCTCTTGAAAACTTAGT+TGG | 0.358568 | 1.4:+20460930 | None:intergenic |
| CGAAGGGATTGCAAGGTTAA+GGG | 0.387959 | 1.4:-20460895 | MS.gene052839:CDS |
| CCTTGCAATTTGTTAGGGCT+TGG | 0.389952 | 1.4:+20460684 | None:intergenic |
| TTCTATTGCTCGAGTTAGAA+AGG | 0.418117 | 1.4:-20460709 | MS.gene052839:CDS |
| AGATGTTCTATTCTGAATGC+AGG | 0.502643 | 1.4:-20460822 | MS.gene052839:CDS |
| GGGTTGGTGAGGATAGAGCT+TGG | 0.522308 | 1.4:-20460875 | MS.gene052839:CDS |
| TGGTGAGGATAGAGCTTGGA+AGG | 0.526001 | 1.4:-20460871 | MS.gene052839:CDS |
| TGCAAGGTTAAGGGTTGGTG+AGG | 0.534060 | 1.4:-20460886 | MS.gene052839:CDS |
| GTTCTATTCTGAATGCAGGT+TGG | 0.535050 | 1.4:-20460818 | MS.gene052839:CDS |
| AAAGATAATAACTTGCAAGT+TGG | 0.545014 | 1.4:-20460783 | MS.gene052839:CDS |
| ATAGAAATAGTAAATGAAAG+TGG | 0.549884 | 1.4:+20460726 | None:intergenic |
| AATACTTGAACGAGTTCGAA+GGG | 0.571263 | 1.4:-20460911 | MS.gene052839:CDS |
| AATTAATCATACCGGGTAGG+AGG | 0.574343 | 1.4:+20460449 | None:intergenic |
| GAATACTTGAACGAGTTCGA+AGG | 0.582457 | 1.4:-20460912 | MS.gene052839:CDS |
| CCAAGCCCTAACAAATTGCA+AGG | 0.590895 | 1.4:-20460684 | MS.gene052839:intron |
| GGGATTGCAAGGTTAAGGGT+TGG | 0.591648 | 1.4:-20460891 | MS.gene052839:CDS |
| ACGAGTTCGAAGGGATTGCA+AGG | 0.614875 | 1.4:-20460902 | MS.gene052839:CDS |
| AGTAATTAATCATACCGGGT+AGG | 0.623102 | 1.4:+20460446 | None:intergenic |
| ATATCTTCAACAAATTCAGG+TGG | 0.668634 | 1.4:-20460516 | MS.gene052839:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAATTACTTACATAAAATG+TGG | - | chr1.4:20460845-20460864 | MS.gene052839:CDS | 15.0% |
| !! | ATAACCTAGAAAGTTATAAA+AGG | + | chr1.4:20460732-20460751 | None:intergenic | 20.0% |
| !! | ATAGAAATAGTAAATGAAAG+TGG | + | chr1.4:20460554-20460573 | None:intergenic | 20.0% |
| !! | ATGTAAGTAATTAATCATAC+CGG | + | chr1.4:20460839-20460858 | None:intergenic | 20.0% |
| !!! | AATTCCTTTTATAACTTTCT+AGG | - | chr1.4:20460725-20460744 | MS.gene052839:CDS | 20.0% |
| ! | AACTTGCAAGTTATTATCTT+TGG | + | chr1.4:20460495-20460514 | None:intergenic | 25.0% |
| ! | TATTCTCTTGAAAACTTAGT+TGG | + | chr1.4:20460350-20460369 | None:intergenic | 25.0% |
| ! | TGTAAGTAATTAATCATACC+GGG | + | chr1.4:20460838-20460857 | None:intergenic | 25.0% |
| !! | AAAGATAATAACTTGCAAGT+TGG | - | chr1.4:20460494-20460513 | MS.gene052839:CDS | 25.0% |
| !!! | AAAAACCTTGCAATTTGTTA+GGG | + | chr1.4:20460601-20460620 | None:intergenic | 25.0% |
| ATATCTTCAACAAATTCAGG+TGG | - | chr1.4:20460761-20460780 | MS.gene052839:CDS | 30.0% | |
| GAGATATCTTCAACAAATTC+AGG | - | chr1.4:20460758-20460777 | MS.gene052839:CDS | 30.0% | |
| ! | GAAAAACCTTGCAATTTGTT+AGG | + | chr1.4:20460602-20460621 | None:intergenic | 30.0% |
| AATACTTGAACGAGTTCGAA+GGG | - | chr1.4:20460366-20460385 | MS.gene052839:intron | 35.0% | |
| AGATGTTCTATTCTGAATGC+AGG | - | chr1.4:20460455-20460474 | MS.gene052839:intron | 35.0% | |
| AGTAATTAATCATACCGGGT+AGG | + | chr1.4:20460834-20460853 | None:intergenic | 35.0% | |
| TTCTATTGCTCGAGTTAGAA+AGG | - | chr1.4:20460568-20460587 | MS.gene052839:intron | 35.0% | |
| AATTAATCATACCGGGTAGG+AGG | + | chr1.4:20460831-20460850 | None:intergenic | 40.0% | |
| CATCAGGTACAAACTGCAAA+TGG | + | chr1.4:20460922-20460941 | None:intergenic | 40.0% | |
| GAATACTTGAACGAGTTCGA+AGG | - | chr1.4:20460365-20460384 | MS.gene052839:intron | 40.0% | |
| GTTCTATTCTGAATGCAGGT+TGG | - | chr1.4:20460459-20460478 | MS.gene052839:intron | 40.0% | |
| ! | TTTTGTGAATTCCTCCTACC+CGG | - | chr1.4:20460817-20460836 | MS.gene052839:CDS | 40.0% |
| CCAAGCCCTAACAAATTGCA+AGG | - | chr1.4:20460593-20460612 | MS.gene052839:intron | 45.0% | |
| CGAAGGGATTGCAAGGTTAA+GGG | - | chr1.4:20460382-20460401 | MS.gene052839:intron | 45.0% | |
| TCGAAGGGATTGCAAGGTTA+AGG | - | chr1.4:20460381-20460400 | MS.gene052839:intron | 45.0% | |
| !! | CCTTGCAATTTGTTAGGGCT+TGG | + | chr1.4:20460596-20460615 | None:intergenic | 45.0% |
| ACGAGTTCGAAGGGATTGCA+AGG | - | chr1.4:20460375-20460394 | MS.gene052839:intron | 50.0% | |
| GGGATTGCAAGGTTAAGGGT+TGG | - | chr1.4:20460386-20460405 | MS.gene052839:intron | 50.0% | |
| TGGTGAGGATAGAGCTTGGA+AGG | - | chr1.4:20460406-20460425 | MS.gene052839:intron | 50.0% | |
| !! | TGCAAGGTTAAGGGTTGGTG+AGG | - | chr1.4:20460391-20460410 | MS.gene052839:intron | 50.0% |
| !! | GGGTTGGTGAGGATAGAGCT+TGG | - | chr1.4:20460402-20460421 | MS.gene052839:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 20460344 | 20460955 | 20460344 | ID=MS.gene052839 |
| chr1.4 | mRNA | 20460344 | 20460955 | 20460344 | ID=MS.gene052839.t1;Parent=MS.gene052839 |
| chr1.4 | exon | 20460685 | 20460955 | 20460685 | ID=MS.gene052839.t1.exon1;Parent=MS.gene052839.t1 |
| chr1.4 | CDS | 20460685 | 20460955 | 20460685 | ID=cds.MS.gene052839.t1;Parent=MS.gene052839.t1 |
| chr1.4 | exon | 20460461 | 20460552 | 20460461 | ID=MS.gene052839.t1.exon2;Parent=MS.gene052839.t1 |
| chr1.4 | CDS | 20460461 | 20460552 | 20460461 | ID=cds.MS.gene052839.t1;Parent=MS.gene052839.t1 |
| chr1.4 | exon | 20460344 | 20460370 | 20460344 | ID=MS.gene052839.t1.exon3;Parent=MS.gene052839.t1 |
| chr1.4 | CDS | 20460344 | 20460370 | 20460344 | ID=cds.MS.gene052839.t1;Parent=MS.gene052839.t1 |
| Gene Sequence |
| Protein sequence |
